seqLogo

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see seqLogo.

Sequence logos for DNA sequence alignments


Bioconductor version: 3.9

seqLogo takes the position weight matrix of a DNA sequence motif and plots the corresponding sequence logo as introduced by Schneider and Stephens (1990).

Author: Oliver Bembom

Maintainer: Oliver Bembom <oliver.bembom at gmail.com>

Citation (from within R, enter citation("seqLogo")):

Installation

To install this package, start R (version "3.6") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("seqLogo")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("seqLogo")
Sequence logos for DNA sequence alignments PDF R Script
Reference Manual PDF

Details

biocViews SequenceMatching, Software
Version 1.50.0
In Bioconductor since BioC 2.0 (R-2.5) (17 years)
License LGPL (>= 2)
Depends methods, grid
Imports stats4
System Requirements
URL
See More
Suggests
Linking To
Enhances
Depends On Me generegulation, motifRG, rGADEM
Imports Me IntEREst, motifRG, PWMEnrich, rGADEM, riboSeqR, spliceSites, SPLINTER, TFBSTools
Suggests Me BCRANK, DiffLogo, Logolas, motifcounter, universalmotif
Links To Me
Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package seqLogo_1.50.0.tar.gz
Windows Binary seqLogo_1.50.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) seqLogo_1.50.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/seqLogo
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/seqLogo
Bioc Package Browser https://code.bioconductor.org/browse/seqLogo/
Package Short Url https://bioconductor.org/packages/seqLogo/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive